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[Fwd: PhD scholarships, Heidelberg University]
by Gary Green 06 Jul '11

06 Jul '11

FYI ------------------------ -------- Original Message -------- Subject: PhD scholarships, Heidelberg University Date: Tue, 5 Jul 2011 22:37:26 +0200 From: Sebastian Padó <pado(a)cl.uni-heidelberg.de> Reply-To: Sebastian Padó <pado(a)cl.uni-heidelberg.de> To: researchers(a)pascal-network.org 5 PhD scholarships in Computational Linguistics: "Semantics beyond the sentence" (Date: July 5th 2011, Deadline: July 31st) We are soliciting applications for 5 PhD scholarships (EUR 1310 per month, tax-free) within the research initiative "Coherence in Language Processing: Semantics Beyond the Sentence". They are associated with the Graduate Program "Semantic Processing", jointly organized by the Computational Linguistics Department (ICL) at Heidelberg University [1] and the NLP Group at HITS gGmbH [2] in Heidelberg, Germany. The scholarships are available from October 1st, 2011, and will run three years (dependent on positive evaluations after the first and second years). The goal of the research initiative "Coherence in Language Processing: Semantics Beyond the Sentence" is to investigate computational models of semantic phenomena at the discourse level by (a) analysing semantic phenomena at the discourse level and represent them; (b) using these representatons to improve semantic analysis; (c) evaluating (a) and (b) in NLP applications, including SMT. See [3] for details. Candidates should have a strong background in computational linguistics and possess a Masters or a Diploma degree in either Computational Linguistics or Computer Science/Linguistics with a specialization in Natural Language Processing. Experience with machine learning, corpus-based methods and statistics is a plus. Strong programming skills (Java, C++, or Python) are required. Scholarship holders will become members of the graduate program "Semantic Processing" [4]. They will participate in a PhD colloquium and may attend lectures at the university and the Heidelberg Graduate School "MathComp" [5]. The graduate program provides a lively research environment with about ten PhD students already enrolled. Interdisciplinary research links exist to computer science, linguistics, and other disciplines. Applications should include a research statement indicating the candidates' interests and plans (which should fall into the area outlined above), university transcripts and a CV. They should also indicate a preference for a primary supervisor matching their plans (Anette Frank, Sebastian Pado, Stefan Riezler, Michael Strube). For more details, see the links below. Please send your application, including all documents, as a single PDF file before **July 31st 2011** to: Anke Sopka & Corinna Schwarz Sekretariat Computerlinguistik sekretariat(a)cl.uni-heidelberg.de Questions should be sent to Sebastian Pado, pado(a)cl.uni-heidelberg.de Links: [1] ICL (http://www.cl.uni-heidelberg.de) [2] HITS (http://www.h-its.org/nlp) [3] Research Initiative Discourse Semantics http://semproc.cl.uni-heidelberg.de/discourse-semantics/ [4] Graduate Program Semantic Processing http://semproc.cl.uni-heidelberg.de [5] Heidelberg Graduate School in Mathematical and Computational Methods for the Sciences http://www.mathcomp.uni-heidelberg.de/ -- Sebastian Pado pado(a)cl.uni-heidelberg.de Institut für Computerlinguistik www.cl.uni-heidelberg.de/~pado Universität Heidelberg Tel. 06221 - 54 3591 Im Neuenheimer Feld 325, 69120 HD Fax 06221 - 54 3242 -- Gary Green

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multimodal imaging methods job - CBU, Cambridge]
by Gary Green 04 Jul '11

04 Jul '11

FYI -------forwarded message---------- Programme Leader/Programme Leader Track Cambridge The MRC Cognition and Brain Sciences Unit (CBSU) is an internationally renowned research institute with state-of-the-art cognitive neuroscience facilities, including a research dedicated 3T Siemens TIM Trio MRI scanner and 306-channel Elekta Neuromag MEG scanner. We are seeking a talented new Group Leader to lead and manage the Methods group at the Unit. The role of the group is both to provide support for analysis of behavioural, fMRI, M/EEG data, DTI and other data, and to develop and apply innovative methods to support the CBSU mission to deliver world-class research on human cognition and its biological underpinnings. The post will be ideal for a senior postdoctoral scientist with an outstanding record of scientific achievement, wishing to establish an independent career in the field of cognitive neuroscience. You will have a strong background in a relevant discipline (e.g., training in signal processing, mathematics, physics, statistics, or computer science), and experience of the type of methods and questions addressed within human cognitive neuroscience. This appointment may be made at either Programme Leader (starting salary £44,314) or Programme Leader Track (starting salary £35,935) level. This is supported by a flexible pay and reward policy, and optional MRC final salary Pension Scheme. We offer 30 days annual leave entitlement. Applications are handled by the RCUK Shared Services Centre; to apply please visit our job board at https://ext.ssc.rcuk.ac.uk and complete an online application form. Applicants who would like to receive this advert in an alternative format (e.g. large print, Braille, audio or hard copy), or who are unable to apply online should contact us by telephone on 01793 867003, Please quote reference number IRC24431. Closing date: 31st August 2011 --

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YNiC seminar 7th July
by Rebecca E Millman 04 Jul '11

04 Jul '11

Dear Users This Thursday (4-5 pm) there will be a project proposal presentation given by Rich Harris. The title of Rich's talk is "The neural representation of perceived changes in facial expression". Please see below for the talk abstract. Everyone is welcome to attend and refreshments will be provided. Best wishes Rebecca Abstract: How the brain represents different aspects of faces remains controversial. This experiment will present participants with stimuli drawn from morphed continua between two different emotional facial expressions. In paired presentations, a second face could: (1) be identical to the first; (2) share the perceived expression category but differ physically along the morphed continuum (within-expression change); (3) differ physically by the same distance along the continuum but in a direction that leads participants to classify the face pairs as showing expressions of different basic emotions (between-expression change). Using an fMR-adaptation paradigm, our aim is to reveal regions of the brain whose activity corresponds to our sensitivity to changes in facial expression. -- Dr. Rebecca E. Millman York Neuroimaging Centre The Biocentre York Science Park York YO10 5DG Email: rem(a)ynic.york.ac.uk Tel: 01904 435 5373

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Matlab / SPM versions
by Mark Hymers 30 Jun '11

30 Jun '11

Hi, We've added Matlab 7.12 (R2011a) to the YNiC systems. The default has not yet changed and remains 7.10 (R2010a). Details of the supported versions are at: https://www.ynic.york.ac.uk/doc/ITPages/FAQ/Misc/SupportedVersions#Matlab At the same time, we've updated SPM8 to the latest revision which is 8+svn4290. Can people please test the new Matlab version as we'll change the default in September unless any major issues are found. We'll also be looking to withdraw Matlab 7.8 in September (as previously announced) as part of a major set of software upgrades. More on this later. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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YNiC seminar today
by rem 30 Jun '11

30 Jun '11

Dear Users Today (4-5 pm in YNiC) there will be a project proposal presentation by Carin Whitney. The title of the project is "Investigating semantic cognition with MEG, fMRI and TMS". Please see below for the talk abstract. Everyone is welcome to attend and refreshments will be provided after the talk. Best wishes Rebecca Abstract: Beth Jefferies, Carin Whitney, Piers Cornelissen and Andy Ellis This project investigates how semantic cognition – referring to our ability to understand the meaning of words, pictures, faces, sounds, and smells – is represented in the brain. We will focus on semantic control, which is one of two principal components of semantic cognition and relates to executive mechanisms that enable us to retrieve and select conceptual knowledge according to the current task or context. Research has been plentiful in describing the spatial extent of the brain regions that underpin semantic control, and has identified a distributed fronto-temporo-parietal network. However, it remains largely unknown how this system is organised (i.e., what the specific functions of each component are) and how well they interact. In the proposed project, we will apply a novel approach to investigate these questions by combining MEG with TMS and fMRI. In particular, we will use MEG to track neural activity, allowing us to generate predictions about likely patterns of communication within the semantic control network and its relation to other components of semantic cognition (i.e., brain areas that encode conceptual knowledge). Follow-up TMS will then be used to impair brain functioning at specific time points to prove causality. Equivalent fMRI data – taken from the same participants and tasks – will guide coil positioning for TMS and act as a spatial localiser for MEG. The project hence aims to establish a neural model of semantic cognition that is based on convergent evidence across different methods, generating potentially strong conclusions about how meaning retrieval is achieved. -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

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YNiC seminar 30th June
by rem 27 Jun '11

27 Jun '11

Dear Users This Thursday (4-5 pm in YNiC) there will be a project proposal presentation by Carin Whitney. The title of the project is "Investigating semantic cognition with MEG, fMRI and TMS". Please see below for the talk abstract. Everyone is welcome to attend and refreshments will be provided after the talk. Best wishes Rebecca Abstract: Beth Jefferies, Carin Whitney, Piers Cornelissen and Andy Ellis This project investigates how semantic cognition – referring to our ability to understand the meaning of words, pictures, faces, sounds, and smells – is represented in the brain. We will focus on semantic control, which is one of two principal components of semantic cognition and relates to executive mechanisms that enable us to retrieve and select conceptual knowledge according to the current task or context. Research has been plentiful in describing the spatial extent of the brain regions that underpin semantic control, and has identified a distributed fronto-temporo-parietal network. However, it remains largely unknown how this system is organised (i.e., what the specific functions of each component are) and how well they interact. In the proposed project, we will apply a novel approach to investigate these questions by combining MEG with TMS and fMRI. In particular, we will use MEG to track neural activity, allowing us to generate predictions about likely patterns of communication within the semantic control network and its relation to other components of semantic cognition (i.e., brain areas that encode conceptual knowledge). Follow-up TMS will then be used to impair brain functioning at specific time points to prove causality. Equivalent fMRI data – taken from the same participants and tasks – will guide coil positioning for TMS and act as a spatial localiser for MEG. The project hence aims to establish a neural model of semantic cognition that is based on convergent evidence across different methods, generating potentially strong conclusions about how meaning retrieval is achieved. -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

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YNiC seminar today (external speaker)
by rem 23 Jun '11

23 Jun '11

Dear Users Today (4-5 pm in YNiC) there will be a talk by Prof. Peter Redgrave from the University of Sheffield. http://www.sheffield.ac.uk/psychology/staff/academic/peter-redgrave The title of Prof. Redgrave's talk is "Goal-directed and habitual control in the basal ganglia: implications for Parkinson's disease". Please see below for the talk abstract. Everyone is welcome to attend and refreshments will be provided after the talk. Best wishes Rebecca Abstract: Progressive loss of the ascending dopaminergic projection in the basal ganglia is a fundamental pathological feature of Parkinson’s disease. Studies in animals and humans have identified spatially segregated functional territories in the basal ganglia for the control of goal-directed and habitual actions. In patients with Parkinson’s disease the loss of dopamine is predominantly in the posterior putamen, a region of the basal ganglia associated with the control of habitual behaviour. These patients may therefore be forced into a progressive reliance on the goal-directed mode of action control that is mediated by comparatively preserved processing in rostro-medial striatum. Thus, in addition of the loss of habits, the behavioural difficulties of Parkinson patients may also be subject to distorting output signals from habitual control circuits which impede the expression of goal-directed action. -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

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YNiC seminar 23rd June (external speaker)
by rem 20 Jun '11

20 Jun '11

Dear Users This Thursday (4-5 pm in YNiC) there will be a talk by Prof. Peter Redgrave from the University of Sheffield. http://www.sheffield.ac.uk/psychology/staff/academic/peter-redgrave The title of Prof. Redgrave's talk is "Goal-directed and habitual control in the basal ganglia: implications for Parkinson's disease". Please see below for the talk abstract. Everyone is welcome to attend and refreshments will be provided after the talk. Best wishes Rebecca Abstract: Progressive loss of the ascending dopaminergic projection in the basal ganglia is a fundamental pathological feature of Parkinson’s disease. Studies in animals and humans have identified spatially segregated functional territories in the basal ganglia for the control of goal-directed and habitual actions. In patients with Parkinson’s disease the loss of dopamine is predominantly in the posterior putamen, a region of the basal ganglia associated with the control of habitual behaviour. These patients may therefore be forced into a progressive reliance on the goal-directed mode of action control that is mediated by comparatively preserved processing in rostro-medial striatum. Thus, in addition of the loss of habits, the behavioural difficulties of Parkinson patients may also be subject to distorting output signals from habitual control circuits which impede the expression of goal-directed action -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

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MEG Analysis Code Changes
by Mark Hymers 13 Jun '11

13 Jun '11

Hi, We have just pushed some core changes to the YNiC NAF Beamforming code. The change is that nafEpochRejection will no longer produce what have become known as "Epoch Rejection Files" but will instead produce "Slice Rejection Files". "Epoch Rejection File" are simply a list of epochs of data which should be rejected during analysis due to artifacts. This can be problematic, as if you change your pre-trigger or epoch duration, the timings of the epochs will move around and you will reject data you didn't mean to, whilst not rejecting the data around your artifacts. The replacement for these are "Slice Rejection Files". These are a list of slice ranges containing bad data - simply a list of comma separated slice ranges; one per line. The analysis (beamformer) code itself will continue to accept Epoch Rejection Files which are listed in YAML files for analysis, but will produce "Deprecation Warnings" to remind you that you should consider converting. If you wish to convert an existing Epoch Rejection File to a Slice Rejection File, you can do one of the following: * Use the nafEpochRejectToSliceReject tool (documented at /mnt/common/naf/naf-doc/userref/scripts/nafEpochRejectToSliceReject.html ) * Load the Epoch Rejection file into nafEpochRejection using the -e flag and it will output a slice rejection file. * Load you study into the Study Definer Tool (nafStudyDefiner) and it will offer to convert all epoch rejection files into slice rejection files and update the YAML file for you at the same time. Although the nafEpochRejection and nafStudyDefiner tool will still read Epoch Rejection Files (to perform conversions), they will no longer allow you to edit or output them; they will only work with and output slice rejection files. It should be noted that internally, all of the code now converts Epoch Rejection Files to Slice Rejection Files. This means that strictly speaking, if you have overlapping epochs, a single epoch number in an epoch rejection may now result in more than one epoch being rejected. This should be a rare corner case and if you want to fully understand and see what is going on, you can use the nafShowEpochs tool to list the epochs you have and, if a epoch or slice rejection file is present in your YAML file, whether or not they will be rejected. This is one of the final big changes before we make the NAF tools available by default on the system. More on that soon. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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YNiC Downtime
by Mark Hymers 09 Jun '11

09 Jun '11

Dear all, We need to reboot the main fileservers at YNiC over the weekend, most likely on Saturday. Can I therefore ask that people log off at the end of Friday and do not leave jobs running on the cluster which will continue beyond Saturday morning - any jobs running at that point will be cancelled. This does not affect the Psychology email server. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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